Calcium in PDB 4h0n: Crystal Structure of Spodoptera Frugiperda DNMT2 E260A/E261A/K263A Mutant

The structure of Crystal Structure of Spodoptera Frugiperda DNMT2 E260A/E261A/K263A Mutant, PDB code: 4h0n was solved by S.Li, J.Du, H.Yang, J.Yin, J.Zhong, J.Ding, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.70 / 2.71
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	97.394, 106.154, 151.016, 90.00, 90.00, 90.00
R / Rfree (%)	20.2 / 25.6

The binding sites of Calcium atom in the Crystal Structure of Spodoptera Frugiperda DNMT2 E260A/E261A/K263A Mutant (pdb code 4h0n). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Crystal Structure of Spodoptera Frugiperda DNMT2 E260A/E261A/K263A Mutant, PDB code: 4h0n:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Crystal Structure of Spodoptera Frugiperda DNMT2 E260A/E261A/K263A Mutant


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Spodoptera Frugiperda DNMT2 E260A/E261A/K263A Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca402 b:47.4 occ:1.00 OD1 A:ASP106 2.5 52.7 1.0 O A:GLY103 2.9 38.1 1.0 OD2 A:ASP106 3.0 34.2 1.0 CG A:ASP106 3.1 44.9 1.0 C A:GLY103 3.8 33.0 1.0 NZ A:LYS134 4.1 22.6 1.0 OE1 A:GLN107 4.2 0.7 1.0 CD A:GLN107 4.3 94.5 1.0 CB A:ASP106 4.5 52.1 1.0 CA A:GLY103 4.6 30.8 1.0 NE2 A:GLN107 4.6 89.2 1.0 N A:ILE104 4.6 23.1 1.0 CA A:ILE104 4.6 23.9 1.0 CG A:GLN107 4.9 82.4 1.0

Calcium binding site 2 out of 4 in the Crystal Structure of Spodoptera Frugiperda DNMT2 E260A/E261A/K263A Mutant


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Spodoptera Frugiperda DNMT2 E260A/E261A/K263A Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca402 b:64.3 occ:1.00 O B:GLY103 2.9 28.3 1.0 NE2 B:GLN107 3.1 78.5 1.0 OD1 B:ASP106 3.5 70.4 1.0 C B:GLY103 3.7 27.3 1.0 CG B:GLN107 3.7 62.2 1.0 CD B:GLN107 3.8 77.1 1.0 OD2 B:ASP106 3.8 72.1 1.0 CA B:ILE104 3.8 29.8 1.0 CG B:ASP106 4.0 66.9 1.0 N B:ILE104 4.1 25.7 1.0 CG2 B:ILE104 4.6 39.5 1.0 C B:ILE104 4.7 34.6 1.0 CB B:ILE104 4.7 37.0 1.0 CA B:GLY103 4.7 34.8 1.0 OE1 B:GLN107 4.9 84.0 1.0

Calcium binding site 3 out of 4 in the Crystal Structure of Spodoptera Frugiperda DNMT2 E260A/E261A/K263A Mutant


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of Spodoptera Frugiperda DNMT2 E260A/E261A/K263A Mutant within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca402 b:62.9 occ:1.00 O C:GLY103 3.0 51.5 1.0 OD1 C:ASP106 3.0 53.9 1.0 C C:GLY103 3.8 46.4 1.0 CG C:ASP106 3.8 48.6 1.0 OD2 C:ASP106 3.8 39.4 1.0 CA C:ILE104 4.1 30.1 1.0 N C:ILE104 4.3 27.5 1.0 CG C:GLN107 4.6 66.0 1.0 CA C:GLY103 4.7 40.6 1.0 C C:ILE104 4.9 30.5 1.0

Calcium binding site 4 out of 4 in the Crystal Structure of Spodoptera Frugiperda DNMT2 E260A/E261A/K263A Mutant


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of Spodoptera Frugiperda DNMT2 E260A/E261A/K263A Mutant within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca402 b:62.2 occ:1.00 OD1 D:ASP106 2.3 94.5 1.0 O D:GLY103 2.5 52.0 1.0 CG D:ASP106 3.4 96.5 1.0 C D:GLY103 3.4 48.8 1.0 CB D:ASP106 3.9 82.0 1.0 CA D:ILE104 4.2 40.1 1.0 N D:ILE104 4.2 44.3 1.0 CA D:GLY103 4.3 49.2 1.0 OD2 D:ASP106 4.4 0.8 1.0 C D:ILE104 4.8 37.9 1.0 N D:ASP106 4.8 58.9 1.0

S.Li, J.Du, H.Yang, J.Yin, J.Ding, J.Zhong. Functional and Structural Characterization of DNMT2 From Spodoptera Frugiperda. J Mol Cell Biol V. 5 64 2013.
ISSN: ISSN 1674-2788
PubMed: 23103599
DOI: 10.1093/JMCB/MJS057